R语言 r3Cseq包 r3Cseq-class()函数中文帮助文档(中英文对照)

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r3Cseq-class(r3Cseq)
r3Cseq-class()所属R语言包：r3Cseq

                                        r3Cseq objects
                                         r3Cseq对象

                                         译者：生物统计家园网 机器人LoveR

描述----------Description----------

The r3Cseq class is a general container for storing and manipulating a set of input parameters, RangeData of interactions regions from r3Cseq analysis , and Rle coverage vector of the genome-wide interaction signal.
r3Cseq类是一个用于存储和操纵一组的输入参数，r3Cseq分析相互作用区域RangeData，RLE覆盖全基因组的相互作用信号向量的一般容器。


插槽----------Slots----------




organismName Object of class "character" the version of  particular assembly genome from UCSC (e.g. mm9, hg18, hg19) . The package supports
organismNameObject类的"character"尤其是组装的基因组由加州大学圣克鲁兹分校的版本（如MM9，hg18，hg19）。该软件包支持




restrictionEnzyme Object of class "character" the
restrictionEnzyme类"character"的对象




alignedReadsExpFile Object of class "character" the
alignedReadsExpFile类"character"的对象




alignedReadsContrFile Object of class "character"
alignedReadsContrFileObject类的"character"




alignedReadsBamExpFile Object of class "character"
alignedReadsBamExpFileObject类的"character"




alignedReadsBamContrFile Object of class "character"
alignedReadsBamContrFileObject类的"character"




alignedReadsType Object of class "character"
alignedReadsTypeObject类的"character"




expLabel Object of class "character"
expLabelObject类的"character"




contrLabel Object of class "character"
contrLabelObject类的"character"




expLibrarySize  Object of class "integer"
expLibrarySize Object类的"integer"




contrLibrarySize  Object of class "integer"
contrLibrarySize Object类的"integer"




expReadLength Object of class "integer"
expReadLengthObject类的"integer"




contrReadLength Object of class "integer"
contrReadLengthObject类的"integer"




expReadCount Object of class "RangedData"
expReadCountObject类的"RangedData"




contrReadCount Object of class "RangedData"
contrReadCountObject类的"RangedData"




expRPM Object of class "RangedData"
expRPMObject类的"RangedData"




contrRPM Object of class "RangedData"
contrRPMObject类的"RangedData"




expInteractionRegions Object of class "RangedData"
expInteractionRegionsObject类的"RangedData"




contrInteractionRegions Object of class "RangedData"
contrInteractionRegionsObject类的"RangedData"




expCoverage Object of class "RleList"
expCoverageObject类的"RleList"




contrCoverage Object of class "RleList"
contrCoverageObject类的"RleList"




isControlInvolved Object of class "logical"
isControlInvolvedObject类的"logical"




isBamInputFile Object of class "logical"
isBamInputFileObject类的"logical"


方法----------Methods----------

expInteractionRegions(x): The interaction regions in experiment x.
expInteractionRegions(x)：在实验x互动区域。

contrInteractionRegions(x): The interaction regions in control x.
contrInteractionRegions(x)：在控制x互动区域。


作者（S）----------Author(s)----------


S. Thongjuea



参见----------See Also----------

getCoverage, getReadCountPerRestrictionFragment, calculateRPM, getInteractions, expInteractionRegions, contrInteractionRegions
getCoverage，getReadCountPerRestrictionFragment，calculateRPM，getInteractions，expInteractionRegions，contrInteractionRegions


举例----------Examples----------


        library(BSgenome.Mmusculus.UCSC.mm9)
    expFile<-system.file("extdata","alignedReads.fetal.liver.subset.bam",package="r3Cseq")
    contrFile<-system.file("extdata","alignedReads.fetal.brain.subset.bam",package="r3Cseq")
       
        my.data<-new("r3Cseq",organismName='mm9',alignedReadsBamExpFile=expFile,
        alignedReadsBamContrFile=contrFile,isControlInvolved=TRUE,isBamInputFile=TRUE,
        expLabel="fetal_liver",contrLabel="fetal_brain",
        restrictionEnzyme='HindIII')
        my.data

转载请注明:出自 生物统计家园网(http://www.biostatistic.net)。


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